GgaINT0141279 @ galGal4
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr26:4079730-4080488:-
Coord C1 exon
chr26:4080291-4080488
Coord A exon
chr26:4079883-4080290
Coord C2 exon
chr26:4079730-4079882
Length
408 bp
Sequences
Splice sites
5' ss Seq
ACTGTAGGT
5' ss Score
4.15
3' ss Seq
ATCACTCGGTCCCCCCACAGCCT
3' ss Score
8.14
Exon sequences
Seq C1 exon
ATCGCCAATGCGGAGGCGAGCTGGGCGAGTACACGGGTTACATTGAGTCCCCCAACTACCCGGGGAATTACCCCGCCAACGTCGAGTGCACGTGGAACATCAACCCACCGCCCAAGAGAAAGATCCTCATCGTGGTGCCAGAGATCTTCCTGCCCTCTGAGGATGAGTGCGGGGACGTCTTGGTGATGCGGAAAAACT
Seq A exon
GTAGGTAACAGAGCGTGGTGCGGTGCTCATGGGAGGAGCTGGGGGAGGACAGAGCAGAGCTGATGAATGCCAAGGGAGAATGGCAGGACCCTGCGTGGCAGTGGGGCGGGTTTATGCAATGGGAAGGTTGTTGGAGGGATGTCAGCATCATGCTGCTGCTGTGCTGCCTTGCTGCTTTGCAGGGATGTGCATGGAACGAGGGCCGTTTGCAAGCTTTTCAGCAATCCTCAGGGTTCAAAACCTTGGAAGGAAGGAATTGCTTCCATTCCAAGGAGGGAATGTCACTGTCCCTGCTATTAAACAGGGGTGGGGGGGTCAGCCTCACTGCCCACAGACAAGCCATCCCCGGTGTCCCCTGTAAGCGACCCCCCACAGCGAGGTGGGGGTCATCACTCGGTCCCCCCACAG
Seq C2 exon
CCTCCCCATCCTCCATCACCACCTATGAGACGTGCCAGACCTACGAGAGACCCATCGCCTTCACCGCCCGCTCTCGCAAACTCTGGATCAACTTCAAAACCAGCGAGGCCAACAGCGCCCGGGGCTTCCAGATCCCCTACGTCACCTATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(57.3=94.0)
A:
NA
C2:
PF0043115=CUB=PD(41.8=88.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGCGGAGGCGAGCTG
R:
ATAGGTGACGTAGGGGATCTGG
Band lengths:
342-750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]